Variant report

Variant	nsv523178
Chromosome Location	chr10:26823045-26828889
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:26827851..26828352-chr20:55447717..55448292,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PDSS1-9	chr10:26823287-26824417	NONHSAT011826

Extended variants
information (count: 211 )
Associated
traits (count: 43 )

Variant overlapped rSNPs/rCNVs (count:211 , 50 per page) page: 1 2 3 4 5

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs10741112	chr10:26823045-26823046	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
2	rs373754894	chr10:26823065-26823066	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
3	rs78547993	chr10:26823089-26823090	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
4	rs112803721	chr10:26823094-26823095	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
5	rs11015153	chr10:26823103-26823104	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
6	rs11815608	chr10:26823105-26823106	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
7	rs150920708	chr10:26823135-26823136	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
8	rs71521688	chr10:26823223-26823224	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
9	rs386370985	chr10:26823246-26823247	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
10	rs71403804	chr10:26823247-26823248	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
11	rs551968052	chr10:26823261-26823262	Weak transcription Strong transcription	n/a	n/a	Overlapped CNVs	n/a
12	rs11015154	chr10:26823269-26823270	Weak transcription Strong transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
13	rs11015155	chr10:26823296-26823297	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs183869761	chr10:26823314-26823315	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
15	rs35011889	chr10:26823339-26823340	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
16	rs568251648	chr10:26823400-26823401	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
17	rs537126903	chr10:26823436-26823437	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
18	rs79219775	chr10:26823439-26823440	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
19	rs553621146	chr10:26823447-26823448	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
20	rs374318405	chr10:26823456-26823457	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
21	rs76542885	chr10:26823465-26823466	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
22	rs565485286	chr10:26823527-26823528	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
23	rs787051	chr10:26823551-26823552	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
24	rs570949810	chr10:26823566-26823567	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
25	rs549713702	chr10:26823588-26823589	Genic enhancers Enhancers Strong transcription Weak transcription ZNF genes & repeats	lncRNA	n/a	Overlapped CNVs	n/a
26	rs561565093	chr10:26823612-26823613	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
27	rs140886227	chr10:26823615-26823616	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
28	rs546955168	chr10:26823617-26823618	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
29	rs188817295	chr10:26823641-26823642	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
30	rs192037236	chr10:26823651-26823652	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
31	rs552206432	chr10:26823660-26823661	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
32	rs146104283	chr10:26823699-26823700	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
33	rs537637974	chr10:26823718-26823719	Genic enhancers Enhancers Strong transcription Weak transcription	lncRNA	n/a	Overlapped CNVs	n/a
34	rs548123921	chr10:26823803-26823804	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
35	rs138846092	chr10:26823833-26823834	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
36	rs113690912	chr10:26823870-26823871	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
37	rs787050	chr10:26823941-26823942	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
38	rs11015156	chr10:26823968-26823969	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
39	rs183125388	chr10:26824032-26824033	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
40	rs114542878	chr10:26824088-26824089	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
41	rs556285618	chr10:26824119-26824120	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
42	rs787049	chr10:26824152-26824153	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
43	rs540990051	chr10:26824156-26824157	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
44	rs546441292	chr10:26824178-26824179	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
45	rs544799931	chr10:26824182-26824183	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
46	rs2488350	chr10:26824237-26824238	Weak transcription Strong transcription	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs575092605	chr10:26824277-26824278	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
48	rs540541530	chr10:26824291-26824292	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
49	rs539642943	chr10:26824330-26824331	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a
50	rs560542266	chr10:26824365-26824366	Weak transcription Strong transcription	lncRNA	n/a	Overlapped CNVs	n/a

Variant related diseases (count:43)

Disease	PMID	Source
Breast cancer	17133270	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Breast cancer	17603634	CNVD
Endometrial cancer	22040021	CNVD
Glioblastoma multiforme	21080181	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Phyllodes tumor	17334353	CNVD
Acute lymphoblastic leukemia	17690704	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Gastric cancer	17908304	CNVD
Chordoma	21602918	CNVD
Ewing''s sarcoma	21437220	CNVD
Medulloblastoma	21979893	CNVD
Melanoma	18172304	CNVD
Pleomorphic xanthoastrocytoma	20730472	CNVD
Lung cancer	18438408	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Ewing''s sarcoma	17952124	CNVD
Oral cancer	21386901	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Breast cancer	21858162	CNVD
Acute lymphoblastic leukemia	20724749	CNVD
Autism	22495311	CNVD
T-cell lymphomas	19863542	CNVD
Esophageal cancer	21851588	CNVD
small cell lung cancer	20016488	CNVD
Behavioral abnormalities	21522184	CNVD
Dysmorphic features	21522184	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Myelofibrosis	22110671	CNVD
Autism	21439084	CNVD
Maculopathy	20981449	CNVD
Ovine squamous-cell carcinoma	17599052	CNVD
T-cell acute lymphoblastic leukemia	18185524	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Adrenocortical carcinoma	18281524	CNVD
Breast cancer	21364760	CNVD
Breast cancer	22522925	CNVD
Pancreatic cancer	17952125	CNVD
abnormal development	18461090	CNVD

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26780200-26834000	Strong transcription	Dnd41	blood
2	chr10:26780400-26837600	Strong transcription	Primary T helper cells fromperipheralblood	blood
3	chr10:26780800-26827000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:26781000-26837400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr10:26793200-26843200	Strong transcription	Fetal Thymus	thymus
6	chr10:26802200-26839800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr10:26802200-26853400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:26802400-26824800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr10:26809200-26826600	Strong transcription	Liver	Liver
10	chr10:26809200-26831800	Weak transcription	Lung	lung
11	chr10:26809200-26834600	Strong transcription	Primary B cells from cord blood	blood
12	chr10:26809200-26844000	Weak transcription	Duodenum Mucosa	Duodenum
13	chr10:26809400-26827200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr10:26809400-26828200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:26813600-26827000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr10:26813800-26837800	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr10:26814200-26824000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr10:26814400-26832600	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr10:26814800-26826800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr10:26814800-26837000	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr10:26815000-26823400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:26815600-26832800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr10:26816200-26826000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr10:26817800-26828800	Strong transcription	Primary B cells from peripheral blood	blood
25	chr10:26818400-26824400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr10:26818600-26832800	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr10:26819600-26837000	Weak transcription	Right Atrium	heart
28	chr10:26820600-26823800	Strong transcription	Primary T cells from cord blood	blood
29	chr10:26820600-26826800	Strong transcription	GM12878-XiMat	blood
30	chr10:26820600-26827200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr10:26820600-26833000	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr10:26820600-26834400	Strong transcription	Thymus	Thymus
33	chr10:26820600-26844600	Weak transcription	Pancreas	Pancrea
34	chr10:26820800-26824000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr10:26820800-26825400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
36	chr10:26820800-26826600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr10:26820800-26826600	Strong transcription	Primary hematopoietic stem cells	blood
38	chr10:26820800-26826600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
39	chr10:26822200-26823800	Strong transcription	Adipose Nuclei	Adipose
40	chr10:26822400-26824600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr10:26822800-26823800	Strong transcription	Spleen	Spleen
42	chr10:26823000-26823200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr10:26823200-26823400	Weak transcription	Left Ventricle	heart
44	chr10:26823200-26826800	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:26823400-26823600	ZNF genes & repeats	Left Ventricle	heart
46	chr10:26823400-26823800	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr10:26823400-26823800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr10:26823400-26823800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr10:26823600-26823800	Enhancers	iPS-15b Cell Line	embryonic stem cell
50	chr10:26823600-26824200	Weak transcription	Left Ventricle	heart

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